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Volume 10 Supplement 3

Eighth International Conference on Bioinformatics (InCoB2009):Computational Biology

Proceedings

Edited by Shoba Ranganathan, Frank Eisenhaber, Joo Chuan Tong and Tin Wee Tan

Asia Pacific Bioinformatics Network (APBioNet) Eighth International Conference on Bioinformatics (InCoB2009). Go to conference site.

Singapore7-11 September 2009

  1. Content type: Proceedings

    Next-generation DNA sequencing technologies generate tens of millions of sequencing reads in one run. These technologies are now widely used in biology research such as in genome-wide identification of polymor...

    Authors: Shu-Qi Zhao, Jun Wang, Li Zhang, Jiong-Tang Li, Xiaocheng Gu, Ge Gao and Liping Wei

    Citation: BMC Genomics 2009 10(Suppl 3):S2

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  2. Content type: Proceedings

    Polymerase chain reaction (PCR) is very useful in many areas of molecular biology research. It is commonly observed that PCR success is critically dependent on design of an effective primer pair. Current tools...

    Authors: Jittima Piriyapongsa, Chumpol Ngamphiw, Anunchai Assawamakin, Pongsakorn Wangkumhang, Payiarat Suwannasri, Uttapong Ruangrit, Gallissara Agavatpanitch and Sissades Tongsima

    Citation: BMC Genomics 2009 10(Suppl 3):S4

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  3. Content type: Proceedings

    Activation of PPARs has been reported to inhibit the proliferation of malignant cells from different lineages. They are involved in transcription regulation of genes upon activation by a ligand. The binding of...

    Authors: Gireedhar Venkatachalam, Alan Prem Kumar, Loo Ser Yue, Shazib Pervaiz, Marie Veronique Clement and Meena Kishore Sakharkar

    Citation: BMC Genomics 2009 10(Suppl 3):S5

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  4. Content type: Proceedings

    Caspases belong to a class of cysteine proteases which function as critical effectors in cellular processes such as apoptosis and inflammation by cleaving substrates immediately after unique tetrapeptide sites...

    Authors: Lawrence JK Wee, Joo Chuan Tong, Tin Wee Tan and Shoba Ranganathan

    Citation: BMC Genomics 2009 10(Suppl 3):S6

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  5. Content type: Proceedings

    Insertional mutagenesis is an effective method for functional genomic studies in various organisms. It can rapidly generate easily tractable mutations. A large-scale insertional mutagenesis with the piggyBac (PB)...

    Authors: Wenwei Yang, Ke Jin, Xing Xie, Dongsheng Li, Jigang Yang, Li Wang, Ning Gu, Yang Zhong and Ling V Sun

    Citation: BMC Genomics 2009 10(Suppl 3):S7

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  6. Content type: Proceedings

    DNA barcoding provides a rapid, accurate, and standardized method for species-level identification using short DNA sequences. Such a standardized identification method is useful for mapping all the species on ...

    Authors: Jeongheui Lim, Sang-Yoon Kim, Sungmin Kim, Hae-Seok Eo, Chang-Bae Kim, Woon Kee Paek, Won Kim and Jong Bhak

    Citation: BMC Genomics 2009 10(Suppl 3):S8

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  7. Content type: Proceedings

    DNA triplexes can naturally occur, co-localize and interact with many other regulatory DNA elements (e.g. G-quadruplex (G4) DNA motifs), specific DNA-binding proteins (e.g. transcription factors (TFs)), and mi...

    Authors: Piroon Jenjaroenpun and Vladimir A Kuznetsov

    Citation: BMC Genomics 2009 10(Suppl 3):S9

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  8. Content type: Proceedings

    Mitochondrial sequence variation provides critical information for studying human evolution and variation. Mitochondrial DNA provides information on the origin of humans, and plays a substantial role in forens...

    Authors: Yong Seok Lee, Woo-Yeon Kim, Mihyun Ji, Ji Han Kim and Jong Bhak

    Citation: BMC Genomics 2009 10(Suppl 3):S12

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  9. Content type: Proceedings

    Next-generation sequencing technologies provide exciting avenues for studies of transcriptomics and population genomics. There is an increasing need to conduct spliced and unspliced alignments of short transcr...

    Authors: Hua Bao, Yuanyan Xiong, Hui Guo, Renchao Zhou, Xuemei Lu, Zhen Yang, Yang Zhong and Suhua Shi

    Citation: BMC Genomics 2009 10(Suppl 3):S13

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  10. Content type: Proceedings

    Gene expression similarity measuring methods were developed and applied to search rapidly growing public microarray databases. However, current expression similarity measuring methods need to be improved to ac...

    Authors: Changwon Keum, Jung Hoon Woo, Won Seok Oh, Sue-Nie Park and Kyoung Tai No

    Citation: BMC Genomics 2009 10(Suppl 3):S15

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  11. Content type: Proceedings

    It has been a long-standing biological challenge to understand the molecular regulatory mechanisms behind mammalian ageing. Harnessing the availability of many ageing microarray datasets, a number of studies h...

    Authors: Joshua WK Ho, Maurizio Stefani, Cristobal G dos Remedios and Michael A Charleston

    Citation: BMC Genomics 2009 10(Suppl 3):S16

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  12. Content type: Proceedings

    The reconstruction of gene regulatory networks from high-throughput "omics" data has become a major goal in the modelling of living systems. Numerous approaches have been proposed, most of which attempt only "...

    Authors: Sidath Randeni Kadupitige, Kin Chun Leung, Julia Sellmeier, Jane Sivieng, Daniel R Catchpoole, Michael E Bain and Bruno A Gaëta

    Citation: BMC Genomics 2009 10(Suppl 3):S17

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  13. Content type: Proceedings

    Pseudomonas putida KT2440 (P. putida KT2440) is a highly versatile saprophytic soil bacterium. It is a certified bio-safety host for transferring foreign genes. Therefore, the bacterium is used as a model organis...

    Authors: Seong-Jin Park, Jong-Soon Choi, Byoung-Chul Kim, Seong-Woong Jho, Jea-Woon Ryu, Daeui Park, Kyung-A Lee, Jong Bhak and Seung Il Kim

    Citation: BMC Genomics 2009 10(Suppl 3):S18

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  14. Content type: Proceedings

    The PolyGalacturonase-Inhibiting Proteins (PGIP) of plant cell wall limit the invasion of phytopathogenic organisms by interacting with the enzyme PolyGalacturonase (PG) they secrete to degrade pectin present ...

    Authors: Aditi Maulik, Hiren Ghosh and Soumalee Basu

    Citation: BMC Genomics 2009 10(Suppl 3):S19

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  15. Content type: Proceedings

    Mitochondria play a vital role in the energy production and apoptotic process of eukaryotic cells. Proteins in the mitochondria are encoded by nuclear and mitochondrial genes. Owing to a large increase in the ...

    Authors: Rohit Reja, AJ Venkatakrishnan, Jungwoo Lee, Byoung-Chul Kim, Jea-Woon Ryu, Sungsam Gong, Jong Bhak and Daeui Park

    Citation: BMC Genomics 2009 10(Suppl 3):S20

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  16. Content type: Proceedings

    Proteins are dynamic macromolecules which may undergo conformational transitions upon changes in environment. As it has been observed in laboratories that protein flexibility is correlated to essential biologi...

    Authors: Yu-Cheng Liu, Meng-Han Yang, Win-Li Lin, Chien-Kang Huang and Yen-Jen Oyang

    Citation: BMC Genomics 2009 10(Suppl 3):S22

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  17. Content type: Proceedings

    Protein-DNA interactions are essential for fundamental biological activities including DNA transcription, replication, packaging, repair and rearrangement. Proteins interacting with DNA can be classified into ...

    Authors: Yu-Feng Huang, Chun-Chin Huang, Yu-Cheng Liu, Yen-Jen Oyang and Chien-Kang Huang

    Citation: BMC Genomics 2009 10(Suppl 3):S23

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  18. Content type: Proceedings

    It is known that the highly pathogenic avian influenza A virus H5N1 binds strongly and with high specificity to the avian-type receptor by its hemagglutinin surface protein. This specificity is normally a barr...

    Authors: Nipa Jongkon, Wanwimon Mokmak, Daungmanee Chuakheaw, Philip J Shaw, Sissades Tongsima and Chak Sangma

    Citation: BMC Genomics 2009 10(Suppl 3):S24

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  19. Content type: Proceedings

    Most phylogenetic studies using current methods have focused on primary DNA sequence information. However, RNA secondary structures are particularly useful in systematics because they include characteristics t...

    Authors: Pramod Kumar Prasad, Veena Tandon, Devendra Kumar Biswal, Lalit Mohan Goswami and Anupam Chatterjee

    Citation: BMC Genomics 2009 10(Suppl 3):S25

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  20. Content type: Proceedings

    Gene regulation is a key mechanism in higher eukaryotic cellular processes. One of the major challenges in gene regulation studies is to identify regulators affecting the expression of their target genes in sp...

    Authors: Je-Keun Rhee, Je-Gun Joung, Jeong-Ho Chang, Zhangjun Fei and Byoung-Tak Zhang

    Citation: BMC Genomics 2009 10(Suppl 3):S29

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  21. Content type: Proceedings

    Human immunodeficiency virus-1 (HIV-1) has a minimal genome of only 9 genes, which encode 15 proteins. HIV-1 thus depends on the human host for virtually every aspect of its life cycle. The universal language ...

    Authors: Sivaraman Balakrishnan, Oznur Tastan, Jaime Carbonell and Judith Klein-Seetharaman

    Citation: BMC Genomics 2009 10(Suppl 3):S30

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  22. Content type: Proceedings

    Parkinson's disease (PD) is one of the most common neurodegenerative disorders, clinically characterized by impaired motor function. Since the etiology of PD is diverse and complex, many researchers have creat...

    Authors: Jin Ok Yang, Woo-Yeon Kim, So-Young Jeong, Jung-Hwa Oh, Sungwoong Jho, Jong Bhak and Nam-Soon Kim

    Citation: BMC Genomics 2009 10(Suppl 3):S32

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  23. Content type: Proceedings

    Lysosomal α-mannosidase is an enzyme that acts to degrade N-linked oligosaccharides and hence plays an important role in mannose metabolism in humans and other mammalian species, especially livestock. Mutation...

    Authors: Javed Mohammed Khan and Shoba Ranganathan

    Citation: BMC Genomics 2009 10(Suppl 3):S33

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  24. Content type: Proceedings

    A disease-causing mutation refers to a heritable genetic change that is associated with a specific phenotype (disease). The detection of a mutation from a patient's sample is critical for the diagnosis, treatm...

    Authors: Sungwoong Jho, Byoung-Chul Kim, Ho Ghang, Ji-Han Kim, Daeui Park, Hak-Min Kim, Soo-young Jung, Ki-young Yoo, Hee-Jin Kim, Sunghoon Lee and Jong Bhak

    Citation: BMC Genomics 2009 10(Suppl 3):S35

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  25. Content type: Proceedings

    The development of high throughput experimental technologies have given rise to the "-omics" era where terabyte-scale datasets for systems-level measurements of various cellular and molecular phenomena pose co...

    Authors: Tin Wee Tan, Shen Jean Lim, Asif M Khan and Shoba Ranganathan

    Citation: BMC Genomics 2009 10(Suppl 3):S36

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